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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN POLY(A) POLYMERASE GAMMA
 
Authors :  Q. Yang, L. Nausch, G. Martin, W. Keller, S. Doublie
Date :  23 Jul 13  (Deposition) - 09 Oct 13  (Release) - 08 Jan 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.79
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Poly(A) Polymerase, Pap, Polymerase, Polyadenylation, 3' Processing, Mrna Processing, Nucleus, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Q. Yang, L. W. Nausch, G. Martin, W. Keller, S. Doublie
Crystal Structure Of Human Poly(A) Polymerase Gamma Reveals A Conserved Catalytic Core For Canonical Poly(A) Polymerases.
J. Mol. Biol. V. 426 43 2014
PubMed-ID: 24076191  |  Reference-DOI: 10.1016/J.JMB.2013.09.025

(-) Compounds

Molecule 1 - POLY(A) POLYMERASE GAMMA
    Chains: A, B
    EC Number: 2.7.7.19
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 1-508
    Gene: PAPOLG, PAP2, PAPG
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: PAP-GAMMA, NEO-POLY(A) POLYMERASE, NEO-PAP, POLYNUCLEOTIDE ADENYLYLTRANSFERASE GAMMA, SRP RNA 3'-ADENYLATING ENZYME

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
13AT2Ligand/Ion3'-DEOXYADENOSINE-5'-TRIPHOSPHATE
2CA2Ligand/IonCALCIUM ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
13AT1Ligand/Ion3'-DEOXYADENOSINE-5'-TRIPHOSPHATE
2CA-1Ligand/IonCALCIUM ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
13AT1Ligand/Ion3'-DEOXYADENOSINE-5'-TRIPHOSPHATE
2CA-1Ligand/IonCALCIUM ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:99 , GLY A:100 , SER A:101 , ASP A:112 , ASP A:114 , ASN A:201 , VAL A:205 , LYS A:227 , TYR A:236 , VAL A:246 , THR A:316 , SER A:324 , CA A:602 , HOH A:714 , HOH A:715 , HOH A:726 , HOH A:727BINDING SITE FOR RESIDUE 3AT A 601
2AC2SOFTWAREASP A:112 , ASP A:114 , 3AT A:601BINDING SITE FOR RESIDUE CA A 602
3AC3SOFTWAREPHE B:99 , GLY B:100 , SER B:101 , ASP B:114 , ASN B:201 , LYS B:227 , TYR B:236 , VAL B:246 , THR B:316 , SER B:324 , CA B:602 , HOH B:723 , HOH B:724 , HOH B:726BINDING SITE FOR RESIDUE 3AT B 601
4AC4SOFTWAREASP B:112 , ASP B:114 , 3AT B:601BINDING SITE FOR RESIDUE CA B 602

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4LT6)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Trp A:280 -Pro A:281
2Tyr A:319 -Pro A:320
3Trp B:280 -Pro B:281
4Tyr B:319 -Pro B:320

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4LT6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4LT6)

(-) Exons   (0, 0)

(no "Exon" information available for 4LT6)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:467
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains d4lt6a1 A:17-213 automated matches                                                                                                                                                                   d4lt6a2 A:214-363 automated matches                                                                                                                   d4lt6a3 A:364-501 automated matches                                                                                      SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhh....eeeeehhhhhh.......eeeeeee....hhhhhhhhhhhhhhhh..eeeeeee......eeeeee..eeeeeeeee.............hhhhhh..hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh...........................hhhhh..................hhhhhhhhhhhhhhhhhhhhhhh....hhhhhhh.........eeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeee...eeeeeeeeeee..hhhhhhhhhhhhhhhhhhh.......eeeeeeee..hhhhh...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lt6 A  17 KHYGITSPISLASPKEIDHIYTQKLIDAMKPFGVFEDEEELNHRLVVLGKLNNLVKEWISDVSESKNLPPSVVATVGGKIFTFGSYRLGVHTKGADIDALCVAPRHVERSDFFQSFFEKLKHQDGIRNLRAVEDAFVPVIKFEFDGIEIDLVFARLAIQTISDNLDLRDDSRLRSLDIRCIRSLNGCRVTDEILHLVPNKETFRLTLRAVKLWAKRRGIYSNMLGFLGGVSWAMLVARTCQLYPNAAASTLVHKFFLVFSKWEWPNPVLLKQPEESNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSTSTRTVMVEEFKQGLAVTDEILQGKSDWSKLLEPPNFFQKYRHYIVLTASASTEENHLEWVGLVESKIRVLVGNLERNEFITLAHVNPQSFPGNYVSMWFLGIIFRDLTYDIQSFTDTVYRQANNINMLKEGMKIEATHVKKKQLHHYLPAEIL 501
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416     ||434       454       464       474       484       494       
                                                                                                                                                                                                                                                                                                                                                                                                                                               422|         443|                                               
                                                                                                                                                                                                                                                                                                                                                                                                                                                431          454                                               


Chain B from PDB  Type:PROTEIN  Length:462
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains d4lt6b1 B:18-213 automated matches                                                                                                                                                                  d4lt6b2 B:214-363 automated matches                                                                                                                   d4lt6b3 B:364-497 automated matches                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .............hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........eeeeehhhhhh.......eeeeeee....hhhhhhh.hhhhhhh.......eee......eeeeee..eeeeeeeee.............hhhhhh..hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh...........................hhhhhhh..................hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhh...hhhhh..eeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee........eeeeeeeeeee..hhhhhhhhhhhhhhhhhhh.......eeeeeeee.hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4lt6 B  18 HYGITSPISLASPKEIDHIYTQKLIDAMKPFGVFEDEEELNHRLVVLGKLNNLVKEWISDVSESKNLPPSVVATVGGKIFTFGSYRLGVHTKGADIDALCVAPRHVERSDFFQSFFEKLKHQDGIRNLRAVEDAFVPVIKFEFDGIEIDLVFARLAIQTISDNLDLRDDSRLRSLDIRCIRSLNGCRVTDEILHLVPNKETFRLTLRAVKLWAKRRGIYSNMLGFLGGVSWAMLVARTCQLYPNAAASTLVHKFFLVFSKWEWPNPVLLKQPEESNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSTSTRTVMVEEFKQGLAVTDEILQGKSDWSKLLEPPNFFQKYRHYIVLTASASTEENHLEWVGLVESKIRVLVGNLERNEFITLAHVNPQSFPGNYVSMWFLGIIFRDLTYDIQSFTDTVYRQANNINMLKEGMKIEATHVKKKQLHHYLP 497
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417    || 435       455       465       475       485       495  
                                                                                                                                                                                                                                                                                                                                                                                                                                              422|         443|                                           
                                                                                                                                                                                                                                                                                                                                                                                                                                               431          454
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (3, 6)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4LT6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4LT6)

(-) Gene Ontology  (15, 15)

Asymmetric Unit(hide GO term definitions)

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  4lt6
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  PAPOG_HUMAN | Q9BWT3
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  2.7.7.19
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 Related Entries

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